[cctbxbb] Python 3 status

Mon Sep 3 23:50:15 PDT 2018

Hi Billy

Sounds good - part of the reason I was asking is that we have students here at Diamond using CCTBX / DIALS as a library and also wanting to use machine learning libraries - however these all seem to be written in Python3 so at the moment we’re in the position of dumping out files in one Python and loading in another to work. We’d anticipated this being a temporary state of affairs as we thought the Python3 migration was more urgent on the LCLS side - turns out this was out-of-date information!

Anyhow, good to know, please shout if you’d like some help with the porting

Cheers Graeme

On 4 Sep 2018, at 06:47, Billy Poon <BKPoon at lbl.gov<mailto:BKPoon at lbl.gov>> wrote:

Hi Graeme,

I'll be starting some of the Python 3 work probably next week. In Cambridge, I'll be looking into building some dependencies as conda packages on Windows since it'll be easier to work with Rob in person.

--
Billy K. Poon
Research Scientist, Molecular Biophysics and Integrated Bioimaging
Lawrence Berkeley National Laboratory
1 Cyclotron Road, M/S 33R0345
Berkeley, CA 94720
Tel: (510) 486-5709
Fax: (510) 486-5909
Web: https://phenix-online.org<https://phenix-online.org/>

On Mon, Sep 3, 2018 at 11:03 AM Graeme.Winter at Diamond.ac.uk<mailto:Graeme.Winter at Diamond.ac.uk> <Graeme.Winter at diamond.ac.uk<mailto:Graeme.Winter at diamond.ac.uk>> wrote:
Nick,

Fair enough, no problem

I had a memory that there was a push from lcls via new psana? Anyhow, no worries

Cheers Graeme

________________________________
From: cctbxbb-bounces at phenix-online.org<mailto:cctbxbb-bounces at phenix-online.org> <cctbxbb-bounces at phenix-online.org<mailto:cctbxbb-bounces at phenix-online.org>> on behalf of Nicholas Sauter <nksauter at lbl.gov<mailto:nksauter at lbl.gov>>
Sent: 03 September 2018 18:57:03
To: cctbx mailing list
Subject: Re: [cctbxbb] Python 3 status

I've just begun syntax conversion (1% done).  I expect Billy and I will work on it over the next few months.  I don't believe it is a high priority discussion topic at present.
NKS

Nicholas K. Sauter, Ph. D.
Senior Scientist, Molecular Biophysics & Integrated Bioimaging Division
Lawrence Berkeley National Laboratory
1 Cyclotron Rd., Bldg. 33R0345
Berkeley, CA 94720
(510) 486-5713

On Mon, Sep 3, 2018 at 12:35 AM, Graeme.Winter at Diamond.ac.uk<mailto:Graeme.Winter at Diamond.ac.uk><mailto:Graeme.Winter at Diamond.ac.uk<mailto:Graeme.Winter at Diamond.ac.uk>> <Graeme.Winter at diamond.ac.uk<mailto:Graeme.Winter at diamond.ac.uk><mailto:Graeme.Winter at diamond.ac.uk<mailto:Graeme.Winter at diamond.ac.uk>>> wrote:
Howdy,

OK, so I am guessing that the radio silence on this thread indicates that I’ve probably not missed much, and this is not really being actively pursued at this time in core CCTBX, so I will assume there is no interest in discussing progress in person later in the month - it’ll keep. Obviously getting the PHENIX and DIALS major releases out of the door as been / is the priority.

best wishes Graeme

> On 29 Aug 2018, at 12:47, Graeme.Winter at Diamond.ac.uk<mailto:Graeme.Winter at Diamond.ac.uk><mailto:Graeme.Winter at Diamond.ac.uk<mailto:Graeme.Winter at Diamond.ac.uk>> <Graeme.Winter at diamond.ac.uk<mailto:Graeme.Winter at diamond.ac.uk><mailto:Graeme.Winter at diamond.ac.uk<mailto:Graeme.Winter at diamond.ac.uk>>> wrote:
>
> Hi Folks,
>
> Are there any updates on the progress to Python 3 compatibility? I know there is a project here
>
> https://github.com/cctbx/cctbx_project/projects/2
>
> but I have lost the thread of activities since I have been out of the office much of the summer. At the very least I know no progress has been made from this side of the pond as we’ve put this work down for now.
>
> i would guess that a lot is on hold while the PHENIX release is done - however I thought I should check in case I have missed anything?
>
> Part of why I ask is that there is a PHENIX meeting in Cambridge real soon now (mid September) and I wonder if it is worth folks from DIALS and PHENIX getting together at that time to discuss this?
>
> Any thoughts?
>
> Thanks & best wishes Graeme
>
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